Sodium in PDB 5f2q: C-Type Lectin From Bothrops Jararacussu
Protein crystallography data
The structure of C-Type Lectin From Bothrops Jararacussu, PDB code: 5f2q
was solved by
R.A.P.De Padua,
M.P.Pinheiro,
M.A.Sartim,
S.V.Sampaio,
M.C.Nonato,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
42.42 /
2.95
|
|
Space group
|
P 21 21 21
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
91.250,
115.150,
156.790,
90.00,
90.00,
90.00
|
|
R / Rfree (%)
|
20.5 /
26.5
|
Other elements in 5f2q:
The structure of C-Type Lectin From Bothrops Jararacussu also contains other interesting chemical elements:
Sodium Binding Sites:
The binding sites of Sodium atom in the C-Type Lectin From Bothrops Jararacussu
(pdb code 5f2q). This binding sites where shown within
5.0 Angstroms radius around Sodium atom.
In total 10 binding sites of Sodium where determined in the
C-Type Lectin From Bothrops Jararacussu, PDB code: 5f2q:
Jump to Sodium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Sodium binding site 1 out
of 10 in 5f2q
Go back to
Sodium Binding Sites List in 5f2q
Sodium binding site 1 out
of 10 in the C-Type Lectin From Bothrops Jararacussu
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 1 of C-Type Lectin From Bothrops Jararacussu within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Na202
b:42.2
occ:1.00
|
HH
|
A:TYR15
|
2.0
|
48.9
|
1.0
|
|
OE1
|
A:GLN132
|
2.3
|
38.7
|
1.0
|
|
O
|
A:SER42
|
2.5
|
40.5
|
1.0
|
|
OH
|
A:TYR15
|
2.5
|
40.8
|
1.0
|
|
OG
|
A:SER42
|
2.6
|
40.8
|
1.0
|
|
HD2
|
A:HIS44
|
2.9
|
41.6
|
1.0
|
|
HG
|
A:SER42
|
3.0
|
49.0
|
1.0
|
|
C
|
A:SER42
|
3.3
|
42.1
|
1.0
|
|
O
|
A:HOH303
|
3.3
|
38.6
|
1.0
|
|
H
|
A:SER42
|
3.3
|
46.5
|
1.0
|
|
CD
|
A:GLN132
|
3.4
|
39.4
|
1.0
|
|
HD12
|
A:LEU13
|
3.4
|
38.1
|
1.0
|
|
HE22
|
A:GLN132
|
3.6
|
47.4
|
1.0
|
|
H2
|
A:HOH303
|
3.6
|
46.4
|
1.0
|
|
CD2
|
A:HIS44
|
3.6
|
34.7
|
1.0
|
|
CB
|
A:SER42
|
3.7
|
36.4
|
1.0
|
|
CZ
|
A:TYR15
|
3.8
|
35.7
|
1.0
|
|
NE2
|
A:GLN132
|
3.9
|
39.5
|
1.0
|
|
CA
|
A:SER42
|
3.9
|
35.7
|
1.0
|
|
HE2
|
A:TYR15
|
3.9
|
44.9
|
1.0
|
|
NE2
|
A:HIS44
|
3.9
|
33.5
|
1.0
|
|
N
|
A:SER42
|
4.0
|
38.8
|
1.0
|
|
H1
|
A:HOH303
|
4.1
|
46.4
|
1.0
|
|
HA
|
A:ILE43
|
4.1
|
41.5
|
1.0
|
|
HB2
|
A:SER42
|
4.1
|
43.7
|
1.0
|
|
CD1
|
A:LEU13
|
4.1
|
31.8
|
1.0
|
|
HD13
|
A:LEU13
|
4.1
|
38.1
|
1.0
|
|
CE2
|
A:TYR15
|
4.2
|
37.4
|
1.0
|
|
N
|
A:ILE43
|
4.3
|
39.1
|
1.0
|
|
HD11
|
A:LEU13
|
4.3
|
38.1
|
1.0
|
|
HB3
|
A:SER42
|
4.4
|
43.7
|
1.0
|
|
HG3
|
A:GLN132
|
4.5
|
47.3
|
1.0
|
|
OE1
|
A:GLU48
|
4.6
|
40.6
|
1.0
|
|
CG
|
A:GLN132
|
4.6
|
39.5
|
1.0
|
|
CA
|
A:ILE43
|
4.7
|
34.6
|
1.0
|
|
HE21
|
A:GLN132
|
4.7
|
47.4
|
1.0
|
|
HA
|
A:SER42
|
4.8
|
42.8
|
1.0
|
|
CG
|
A:HIS44
|
4.8
|
37.0
|
1.0
|
|
OD2
|
A:ASP83
|
4.8
|
41.6
|
1.0
|
|
CE1
|
A:TYR15
|
4.9
|
39.6
|
1.0
|
|
H
|
A:ILE43
|
4.9
|
47.0
|
1.0
|
|
HE1
|
A:TYR15
|
5.0
|
47.6
|
1.0
|
|
Sodium binding site 2 out
of 10 in 5f2q
Go back to
Sodium Binding Sites List in 5f2q
Sodium binding site 2 out
of 10 in the C-Type Lectin From Bothrops Jararacussu
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 2 of C-Type Lectin From Bothrops Jararacussu within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Na202
b:45.1
occ:1.00
|
HH
|
B:TYR15
|
2.4
|
47.1
|
1.0
|
|
OE1
|
B:GLN132
|
2.5
|
42.1
|
1.0
|
|
O
|
B:SER42
|
2.5
|
37.4
|
1.0
|
|
HB3
|
B:SER42
|
2.7
|
51.3
|
1.0
|
|
HG
|
B:SER42
|
2.9
|
56.5
|
1.0
|
|
HD2
|
B:HIS44
|
3.0
|
47.6
|
1.0
|
|
OH
|
B:TYR15
|
3.0
|
39.3
|
1.0
|
|
HD13
|
B:LEU13
|
3.1
|
54.0
|
1.0
|
|
C
|
B:SER42
|
3.2
|
40.4
|
1.0
|
|
HD12
|
B:LEU13
|
3.3
|
54.0
|
1.0
|
|
CB
|
B:SER42
|
3.4
|
42.7
|
1.0
|
|
H
|
B:SER42
|
3.4
|
52.0
|
1.0
|
|
OG
|
B:SER42
|
3.5
|
47.1
|
1.0
|
|
CD
|
B:GLN132
|
3.5
|
42.5
|
1.0
|
|
CD1
|
B:LEU13
|
3.5
|
45.0
|
1.0
|
|
CD2
|
B:HIS44
|
3.6
|
39.7
|
1.0
|
|
HD11
|
B:LEU13
|
3.6
|
54.0
|
1.0
|
|
CA
|
B:SER42
|
3.7
|
40.7
|
1.0
|
|
HE22
|
B:GLN132
|
3.7
|
48.7
|
1.0
|
|
NE2
|
B:HIS44
|
3.9
|
40.9
|
1.0
|
|
N
|
B:SER42
|
4.0
|
43.4
|
1.0
|
|
NE2
|
B:GLN132
|
4.0
|
40.6
|
1.0
|
|
HE2
|
B:TYR15
|
4.1
|
48.0
|
1.0
|
|
CZ
|
B:TYR15
|
4.2
|
43.4
|
1.0
|
|
HB2
|
B:SER42
|
4.3
|
51.3
|
1.0
|
|
N
|
B:ILE43
|
4.3
|
39.2
|
1.0
|
|
HA
|
B:ILE43
|
4.3
|
49.0
|
1.0
|
|
OD2
|
B:ASP83
|
4.4
|
39.4
|
1.0
|
|
CE2
|
B:TYR15
|
4.6
|
40.0
|
1.0
|
|
HG3
|
B:GLN132
|
4.6
|
49.0
|
1.0
|
|
HA
|
B:SER42
|
4.6
|
48.9
|
1.0
|
|
CG
|
B:HIS44
|
4.7
|
37.4
|
1.0
|
|
CG
|
B:GLN132
|
4.7
|
40.8
|
1.0
|
|
CA
|
B:ILE43
|
4.8
|
40.8
|
1.0
|
|
HE21
|
B:GLN132
|
4.8
|
48.7
|
1.0
|
|
OE1
|
B:GLU48
|
4.9
|
36.8
|
1.0
|
|
H
|
B:ILE43
|
4.9
|
47.1
|
1.0
|
|
Sodium binding site 3 out
of 10 in 5f2q
Go back to
Sodium Binding Sites List in 5f2q
Sodium binding site 3 out
of 10 in the C-Type Lectin From Bothrops Jararacussu
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 3 of C-Type Lectin From Bothrops Jararacussu within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Na202
b:45.7
occ:1.00
|
HH
|
C:TYR15
|
1.9
|
56.8
|
1.0
|
|
OH
|
C:TYR15
|
2.5
|
47.3
|
1.0
|
|
OE1
|
C:GLN132
|
2.5
|
45.7
|
1.0
|
|
OG
|
C:SER42
|
2.5
|
52.5
|
1.0
|
|
O
|
C:SER42
|
2.7
|
45.2
|
1.0
|
|
HD2
|
C:HIS44
|
2.9
|
54.4
|
1.0
|
|
HG
|
C:SER42
|
2.9
|
62.9
|
1.0
|
|
HD12
|
C:LEU13
|
3.1
|
56.9
|
1.0
|
|
CD
|
C:GLN132
|
3.4
|
47.8
|
1.0
|
|
H
|
C:SER42
|
3.4
|
58.7
|
1.0
|
|
C
|
C:SER42
|
3.4
|
43.8
|
1.0
|
|
CD2
|
C:HIS44
|
3.6
|
45.4
|
1.0
|
|
CZ
|
C:TYR15
|
3.7
|
48.9
|
1.0
|
|
CB
|
C:SER42
|
3.8
|
48.2
|
1.0
|
|
HE22
|
C:GLN132
|
3.8
|
56.0
|
1.0
|
|
NE2
|
C:HIS44
|
3.8
|
44.5
|
1.0
|
|
CD1
|
C:LEU13
|
3.9
|
47.4
|
1.0
|
|
HE2
|
C:TYR15
|
3.9
|
60.0
|
1.0
|
|
CA
|
C:SER42
|
4.0
|
46.0
|
1.0
|
|
NE2
|
C:GLN132
|
4.0
|
46.7
|
1.0
|
|
HD11
|
C:LEU13
|
4.0
|
56.9
|
1.0
|
|
HD13
|
C:LEU13
|
4.0
|
56.9
|
1.0
|
|
N
|
C:SER42
|
4.0
|
48.9
|
1.0
|
|
HA
|
C:ILE43
|
4.2
|
53.7
|
1.0
|
|
CE2
|
C:TYR15
|
4.2
|
50.0
|
1.0
|
|
HB2
|
C:SER42
|
4.2
|
57.8
|
1.0
|
|
N
|
C:ILE43
|
4.4
|
43.3
|
1.0
|
|
HG3
|
C:GLN132
|
4.4
|
56.6
|
1.0
|
|
HB3
|
C:SER42
|
4.4
|
57.8
|
1.0
|
|
CG
|
C:GLN132
|
4.6
|
47.1
|
1.0
|
|
OE1
|
C:GLU48
|
4.7
|
50.4
|
1.0
|
|
OD2
|
C:ASP83
|
4.8
|
41.0
|
1.0
|
|
HE21
|
C:GLN132
|
4.8
|
56.0
|
1.0
|
|
CA
|
C:ILE43
|
4.8
|
44.8
|
1.0
|
|
OE2
|
C:GLU48
|
4.8
|
47.5
|
1.0
|
|
CE1
|
C:TYR15
|
4.8
|
48.6
|
1.0
|
|
CG
|
C:HIS44
|
4.9
|
43.9
|
1.0
|
|
HA
|
C:SER42
|
4.9
|
55.2
|
1.0
|
|
HE1
|
C:TYR15
|
4.9
|
58.4
|
1.0
|
|
HB2
|
C:LEU13
|
5.0
|
57.7
|
1.0
|
|
Sodium binding site 4 out
of 10 in 5f2q
Go back to
Sodium Binding Sites List in 5f2q
Sodium binding site 4 out
of 10 in the C-Type Lectin From Bothrops Jararacussu
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 4 of C-Type Lectin From Bothrops Jararacussu within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Na202
b:44.8
occ:1.00
|
HH
|
D:TYR15
|
2.0
|
57.6
|
1.0
|
|
OH
|
D:TYR15
|
2.4
|
48.0
|
1.0
|
|
OE1
|
D:GLN132
|
2.5
|
43.2
|
1.0
|
|
HD12
|
D:LEU13
|
2.7
|
49.5
|
1.0
|
|
HD2
|
D:HIS44
|
2.9
|
54.1
|
1.0
|
|
HG
|
D:SER42
|
2.9
|
55.9
|
1.0
|
|
O
|
D:SER42
|
2.9
|
44.1
|
1.0
|
|
OG
|
D:SER42
|
3.0
|
46.6
|
1.0
|
|
CD1
|
D:LEU13
|
3.5
|
41.3
|
1.0
|
|
CD
|
D:GLN132
|
3.6
|
45.8
|
1.0
|
|
HD13
|
D:LEU13
|
3.6
|
49.5
|
1.0
|
|
HD11
|
D:LEU13
|
3.6
|
49.5
|
1.0
|
|
CD2
|
D:HIS44
|
3.7
|
45.1
|
1.0
|
|
C
|
D:SER42
|
3.7
|
45.6
|
1.0
|
|
CZ
|
D:TYR15
|
3.7
|
43.6
|
1.0
|
|
H
|
D:SER42
|
3.9
|
56.4
|
1.0
|
|
HE2
|
D:TYR15
|
4.0
|
57.8
|
1.0
|
|
HE22
|
D:GLN132
|
4.1
|
54.8
|
1.0
|
|
CB
|
D:SER42
|
4.2
|
45.5
|
1.0
|
|
NE2
|
D:HIS44
|
4.2
|
47.6
|
1.0
|
|
HA
|
D:ILE43
|
4.2
|
57.6
|
1.0
|
|
NE2
|
D:GLN132
|
4.3
|
45.7
|
1.0
|
|
CE2
|
D:TYR15
|
4.3
|
48.1
|
1.0
|
|
CA
|
D:SER42
|
4.4
|
46.5
|
1.0
|
|
HG3
|
D:GLN132
|
4.4
|
51.3
|
1.0
|
|
N
|
D:SER42
|
4.5
|
47.0
|
1.0
|
|
HB2
|
D:SER42
|
4.5
|
54.7
|
1.0
|
|
OE2
|
D:GLU48
|
4.6
|
49.3
|
1.0
|
|
N
|
D:ILE43
|
4.6
|
44.1
|
1.0
|
|
HB2
|
D:LEU13
|
4.6
|
54.2
|
1.0
|
|
OE1
|
D:GLU48
|
4.6
|
46.9
|
1.0
|
|
CG
|
D:GLN132
|
4.7
|
42.7
|
1.0
|
|
CG
|
D:LEU13
|
4.8
|
41.3
|
1.0
|
|
CE1
|
D:TYR15
|
4.8
|
44.1
|
1.0
|
|
HE1
|
D:TYR15
|
4.8
|
53.0
|
1.0
|
|
CA
|
D:ILE43
|
4.9
|
48.0
|
1.0
|
|
HB3
|
D:SER42
|
4.9
|
54.7
|
1.0
|
|
CG
|
D:HIS44
|
4.9
|
44.0
|
1.0
|
|
HG
|
D:LEU13
|
4.9
|
49.6
|
1.0
|
|
Sodium binding site 5 out
of 10 in 5f2q
Go back to
Sodium Binding Sites List in 5f2q
Sodium binding site 5 out
of 10 in the C-Type Lectin From Bothrops Jararacussu
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 5 of C-Type Lectin From Bothrops Jararacussu within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Na202
b:33.8
occ:1.00
|
HH
|
E:TYR15
|
1.7
|
52.5
|
1.0
|
|
O
|
E:SER42
|
2.3
|
36.4
|
1.0
|
|
OE1
|
E:GLN132
|
2.4
|
41.1
|
1.0
|
|
O
|
E:HOH309
|
2.5
|
38.6
|
1.0
|
|
OH
|
E:TYR15
|
2.5
|
43.8
|
1.0
|
|
O
|
E:HOH301
|
2.5
|
41.1
|
1.0
|
|
OG
|
E:SER42
|
2.6
|
44.2
|
1.0
|
|
H2
|
E:HOH309
|
2.9
|
46.3
|
1.0
|
|
H
|
E:SER42
|
3.0
|
50.2
|
1.0
|
|
HD12
|
E:LEU13
|
3.0
|
52.2
|
1.0
|
|
H2
|
E:HOH301
|
3.0
|
49.3
|
1.0
|
|
HE2
|
E:TYR15
|
3.1
|
47.6
|
1.0
|
|
HG
|
E:SER42
|
3.1
|
53.0
|
1.0
|
|
H1
|
E:HOH301
|
3.1
|
49.3
|
1.0
|
|
H1
|
E:HOH309
|
3.1
|
46.3
|
1.0
|
|
C
|
E:SER42
|
3.2
|
38.1
|
1.0
|
|
HE22
|
E:GLN132
|
3.3
|
48.4
|
1.0
|
|
CD
|
E:GLN132
|
3.4
|
40.6
|
1.0
|
|
HD2
|
E:HIS44
|
3.4
|
49.3
|
1.0
|
|
CZ
|
E:TYR15
|
3.5
|
43.5
|
1.0
|
|
CE2
|
E:TYR15
|
3.6
|
39.7
|
1.0
|
|
N
|
E:SER42
|
3.6
|
41.9
|
1.0
|
|
CD1
|
E:LEU13
|
3.7
|
43.5
|
1.0
|
|
CB
|
E:SER42
|
3.7
|
39.7
|
1.0
|
|
CA
|
E:SER42
|
3.7
|
40.4
|
1.0
|
|
NE2
|
E:GLN132
|
3.7
|
40.3
|
1.0
|
|
HD13
|
E:LEU13
|
3.7
|
52.2
|
1.0
|
|
HD11
|
E:LEU13
|
3.8
|
52.2
|
1.0
|
|
HE2
|
E:HIS44
|
4.0
|
49.5
|
1.0
|
|
CD2
|
E:HIS44
|
4.0
|
41.1
|
1.0
|
|
HA
|
E:ILE43
|
4.2
|
49.6
|
1.0
|
|
HB2
|
E:SER42
|
4.2
|
47.6
|
1.0
|
|
NE2
|
E:HIS44
|
4.3
|
41.2
|
1.0
|
|
N
|
E:ILE43
|
4.3
|
38.7
|
1.0
|
|
HB3
|
E:SER42
|
4.3
|
47.6
|
1.0
|
|
HE21
|
E:GLN132
|
4.6
|
48.4
|
1.0
|
|
HB1
|
E:ALA41
|
4.6
|
51.9
|
1.0
|
|
HA
|
E:SER42
|
4.6
|
48.5
|
1.0
|
|
OD2
|
E:ASP83
|
4.7
|
38.8
|
1.0
|
|
HB2
|
E:GLN132
|
4.7
|
50.7
|
1.0
|
|
HA
|
E:ALA41
|
4.7
|
47.8
|
1.0
|
|
CG
|
E:GLN132
|
4.7
|
43.5
|
1.0
|
|
CA
|
E:ILE43
|
4.8
|
41.4
|
1.0
|
|
CE1
|
E:TYR15
|
4.8
|
45.1
|
1.0
|
|
HB3
|
E:GLN132
|
4.8
|
50.7
|
1.0
|
|
C
|
E:ALA41
|
4.8
|
40.4
|
1.0
|
|
HB2
|
E:LEU13
|
4.8
|
51.5
|
1.0
|
|
O
|
E:HOH303
|
5.0
|
41.0
|
1.0
|
|
CD2
|
E:TYR15
|
5.0
|
39.0
|
1.0
|
|
CB
|
E:GLN132
|
5.0
|
42.2
|
1.0
|
|
OE1
|
E:GLU48
|
5.0
|
42.5
|
1.0
|
|
Sodium binding site 6 out
of 10 in 5f2q
Go back to
Sodium Binding Sites List in 5f2q
Sodium binding site 6 out
of 10 in the C-Type Lectin From Bothrops Jararacussu
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 6 of C-Type Lectin From Bothrops Jararacussu within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Na202
b:38.5
occ:1.00
|
OH
|
F:TYR15
|
2.4
|
37.9
|
1.0
|
|
O
|
F:SER42
|
2.4
|
40.7
|
1.0
|
|
OE1
|
F:GLN132
|
2.4
|
41.8
|
1.0
|
|
O
|
F:HOH301
|
2.4
|
38.4
|
1.0
|
|
H2
|
F:HOH301
|
2.9
|
46.1
|
1.0
|
|
H1
|
F:HOH301
|
3.0
|
46.1
|
1.0
|
|
OG
|
F:SER42
|
3.1
|
42.9
|
1.0
|
|
HD2
|
F:HIS44
|
3.1
|
46.2
|
1.0
|
|
HD12
|
F:LEU13
|
3.1
|
54.2
|
1.0
|
|
C
|
F:SER42
|
3.4
|
37.9
|
1.0
|
|
H
|
F:SER42
|
3.5
|
51.7
|
1.0
|
|
HG
|
F:SER42
|
3.5
|
51.4
|
1.0
|
|
CD
|
F:GLN132
|
3.6
|
41.2
|
1.0
|
|
CZ
|
F:TYR15
|
3.6
|
37.8
|
1.0
|
|
HE2
|
F:TYR15
|
3.7
|
50.4
|
1.0
|
|
HD13
|
F:LEU13
|
3.8
|
54.2
|
1.0
|
|
CD2
|
F:HIS44
|
3.8
|
38.5
|
1.0
|
|
CD1
|
F:LEU13
|
3.8
|
45.2
|
1.0
|
|
HA
|
F:ILE43
|
4.0
|
43.8
|
1.0
|
|
CE2
|
F:TYR15
|
4.0
|
42.0
|
1.0
|
|
CA
|
F:SER42
|
4.1
|
37.6
|
1.0
|
|
N
|
F:SER42
|
4.1
|
43.0
|
1.0
|
|
CB
|
F:SER42
|
4.1
|
40.7
|
1.0
|
|
HE22
|
F:GLN132
|
4.2
|
46.1
|
1.0
|
|
HD11
|
F:LEU13
|
4.2
|
54.2
|
1.0
|
|
NE2
|
F:HIS44
|
4.2
|
39.7
|
1.0
|
|
NE2
|
F:GLN132
|
4.3
|
38.5
|
1.0
|
|
N
|
F:ILE43
|
4.3
|
39.8
|
1.0
|
|
HG3
|
F:GLN132
|
4.4
|
46.1
|
1.0
|
|
OE1
|
F:GLU48
|
4.4
|
40.7
|
1.0
|
|
HB2
|
F:SER42
|
4.5
|
48.8
|
1.0
|
|
OE2
|
F:GLU48
|
4.6
|
39.7
|
1.0
|
|
HB2
|
F:LEU13
|
4.6
|
50.5
|
1.0
|
|
CG
|
F:GLN132
|
4.6
|
38.4
|
1.0
|
|
CA
|
F:ILE43
|
4.7
|
36.5
|
1.0
|
|
CE1
|
F:TYR15
|
4.7
|
38.0
|
1.0
|
|
HB3
|
F:SER42
|
4.8
|
48.8
|
1.0
|
|
CD
|
F:GLU48
|
4.9
|
40.4
|
1.0
|
|
HE1
|
F:TYR15
|
4.9
|
45.5
|
1.0
|
|
HE3
|
F:MET10
|
4.9
|
48.3
|
1.0
|
|
HB1
|
F:ALA41
|
5.0
|
51.0
|
1.0
|
|
Sodium binding site 7 out
of 10 in 5f2q
Go back to
Sodium Binding Sites List in 5f2q
Sodium binding site 7 out
of 10 in the C-Type Lectin From Bothrops Jararacussu
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 7 of C-Type Lectin From Bothrops Jararacussu within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Na202
b:38.0
occ:1.00
|
OH
|
G:TYR15
|
2.3
|
38.3
|
1.0
|
|
OE1
|
G:GLN132
|
2.4
|
33.8
|
1.0
|
|
O
|
G:SER42
|
2.4
|
34.0
|
1.0
|
|
O
|
G:HOH301
|
2.5
|
38.7
|
1.0
|
|
H1
|
G:HOH301
|
2.9
|
46.4
|
1.0
|
|
HD2
|
G:HIS44
|
3.0
|
44.5
|
1.0
|
|
HG
|
G:SER42
|
3.0
|
45.9
|
1.0
|
|
OG
|
G:SER42
|
3.2
|
38.2
|
1.0
|
|
H2
|
G:HOH301
|
3.3
|
46.4
|
1.0
|
|
C
|
G:SER42
|
3.3
|
37.4
|
1.0
|
|
HD12
|
G:LEU13
|
3.4
|
41.5
|
1.0
|
|
CD
|
G:GLN132
|
3.5
|
36.3
|
1.0
|
|
H
|
G:SER42
|
3.6
|
42.9
|
1.0
|
|
CZ
|
G:TYR15
|
3.6
|
35.1
|
1.0
|
|
HE2
|
G:TYR15
|
3.6
|
42.6
|
1.0
|
|
CD2
|
G:HIS44
|
3.7
|
37.1
|
1.0
|
|
HA
|
G:ILE43
|
3.9
|
44.4
|
1.0
|
|
CE2
|
G:TYR15
|
4.0
|
35.5
|
1.0
|
|
CA
|
G:SER42
|
4.1
|
35.5
|
1.0
|
|
HE22
|
G:GLN132
|
4.1
|
38.5
|
1.0
|
|
N
|
G:SER42
|
4.1
|
35.7
|
1.0
|
|
CB
|
G:SER42
|
4.2
|
35.9
|
1.0
|
|
NE2
|
G:HIS44
|
4.2
|
38.5
|
1.0
|
|
N
|
G:ILE43
|
4.2
|
39.6
|
1.0
|
|
CD1
|
G:LEU13
|
4.2
|
34.6
|
1.0
|
|
NE2
|
G:GLN132
|
4.2
|
32.1
|
1.0
|
|
HD13
|
G:LEU13
|
4.3
|
41.5
|
1.0
|
|
OE1
|
G:GLU48
|
4.3
|
39.0
|
1.0
|
|
HG3
|
G:GLN132
|
4.4
|
43.0
|
1.0
|
|
HD11
|
G:LEU13
|
4.4
|
41.5
|
1.0
|
|
CA
|
G:ILE43
|
4.5
|
37.0
|
1.0
|
|
HB2
|
G:SER42
|
4.6
|
43.1
|
1.0
|
|
CG
|
G:GLN132
|
4.6
|
35.8
|
1.0
|
|
CE1
|
G:TYR15
|
4.7
|
36.9
|
1.0
|
|
HE1
|
G:TYR15
|
4.8
|
44.3
|
1.0
|
|
CG
|
G:HIS44
|
4.8
|
34.4
|
1.0
|
|
H
|
G:HIS44
|
4.8
|
47.8
|
1.0
|
|
H
|
G:ILE43
|
4.9
|
47.5
|
1.0
|
|
HB3
|
G:SER42
|
4.9
|
43.1
|
1.0
|
|
HA
|
G:SER42
|
5.0
|
42.6
|
1.0
|
|
HB2
|
G:LEU13
|
5.0
|
45.9
|
1.0
|
|
OD2
|
G:ASP83
|
5.0
|
36.1
|
1.0
|
|
Sodium binding site 8 out
of 10 in 5f2q
Go back to
Sodium Binding Sites List in 5f2q
Sodium binding site 8 out
of 10 in the C-Type Lectin From Bothrops Jararacussu
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 8 of C-Type Lectin From Bothrops Jararacussu within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
H:Na202
b:40.3
occ:1.00
|
HH
|
H:TYR15
|
1.9
|
51.5
|
1.0
|
|
OH
|
H:TYR15
|
2.4
|
42.9
|
1.0
|
|
OE1
|
H:GLN132
|
2.4
|
42.9
|
1.0
|
|
O
|
H:SER42
|
2.5
|
49.9
|
1.0
|
|
OG
|
H:SER42
|
2.6
|
47.8
|
1.0
|
|
HD2
|
H:HIS44
|
2.8
|
54.7
|
1.0
|
|
HG
|
H:SER42
|
3.0
|
57.3
|
1.0
|
|
C
|
H:SER42
|
3.3
|
46.2
|
1.0
|
|
H
|
H:SER42
|
3.3
|
50.4
|
1.0
|
|
HD12
|
H:LEU13
|
3.4
|
53.9
|
1.0
|
|
CD2
|
H:HIS44
|
3.5
|
45.6
|
1.0
|
|
CD
|
H:GLN132
|
3.5
|
43.5
|
1.0
|
|
NE2
|
H:HIS44
|
3.7
|
46.2
|
1.0
|
|
CZ
|
H:TYR15
|
3.7
|
40.0
|
1.0
|
|
CB
|
H:SER42
|
3.8
|
40.0
|
1.0
|
|
CA
|
H:SER42
|
3.9
|
43.3
|
1.0
|
|
HE2
|
H:TYR15
|
3.9
|
53.8
|
1.0
|
|
N
|
H:SER42
|
4.0
|
42.0
|
1.0
|
|
HE22
|
H:GLN132
|
4.0
|
50.3
|
1.0
|
|
HA
|
H:ILE43
|
4.1
|
51.7
|
1.0
|
|
CD1
|
H:LEU13
|
4.1
|
44.9
|
1.0
|
|
NE2
|
H:GLN132
|
4.2
|
41.9
|
1.0
|
|
HD13
|
H:LEU13
|
4.2
|
53.9
|
1.0
|
|
N
|
H:ILE43
|
4.2
|
43.7
|
1.0
|
|
HD11
|
H:LEU13
|
4.2
|
53.9
|
1.0
|
|
CE2
|
H:TYR15
|
4.3
|
44.8
|
1.0
|
|
HB2
|
H:SER42
|
4.3
|
48.0
|
1.0
|
|
HG3
|
H:GLN132
|
4.3
|
53.1
|
1.0
|
|
HB3
|
H:SER42
|
4.4
|
48.0
|
1.0
|
|
CG
|
H:GLN132
|
4.6
|
44.3
|
1.0
|
|
OD2
|
H:ASP83
|
4.6
|
44.5
|
1.0
|
|
CA
|
H:ILE43
|
4.7
|
43.0
|
1.0
|
|
CG
|
H:HIS44
|
4.7
|
45.9
|
1.0
|
|
HA
|
H:SER42
|
4.8
|
52.0
|
1.0
|
|
CE1
|
H:TYR15
|
4.8
|
38.1
|
1.0
|
|
HE1
|
H:TYR15
|
4.9
|
45.7
|
1.0
|
|
H
|
H:ILE43
|
4.9
|
52.4
|
1.0
|
|
HE21
|
H:GLN132
|
5.0
|
50.3
|
1.0
|
|
Sodium binding site 9 out
of 10 in 5f2q
Go back to
Sodium Binding Sites List in 5f2q
Sodium binding site 9 out
of 10 in the C-Type Lectin From Bothrops Jararacussu
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 9 of C-Type Lectin From Bothrops Jararacussu within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Na202
b:32.8
occ:1.00
|
HD2
|
I:HIS44
|
2.5
|
45.8
|
1.0
|
|
HH
|
I:TYR15
|
2.6
|
49.3
|
1.0
|
|
HD12
|
I:LEU13
|
2.7
|
44.4
|
1.0
|
|
OE1
|
I:GLN132
|
2.9
|
38.5
|
1.0
|
|
O
|
I:SER42
|
3.0
|
33.9
|
1.0
|
|
HB3
|
I:SER42
|
3.1
|
49.3
|
1.0
|
|
OH
|
I:TYR15
|
3.1
|
41.1
|
1.0
|
|
CD2
|
I:HIS44
|
3.2
|
38.1
|
1.0
|
|
HG
|
I:SER42
|
3.2
|
52.8
|
1.0
|
|
CD1
|
I:LEU13
|
3.3
|
37.0
|
1.0
|
|
HD11
|
I:LEU13
|
3.3
|
44.4
|
1.0
|
|
HD13
|
I:LEU13
|
3.3
|
44.4
|
1.0
|
|
NE2
|
I:HIS44
|
3.5
|
36.6
|
1.0
|
|
CD
|
I:GLN132
|
3.8
|
36.9
|
1.0
|
|
OG
|
I:SER42
|
3.8
|
44.0
|
1.0
|
|
C
|
I:SER42
|
3.8
|
35.4
|
1.0
|
|
CB
|
I:SER42
|
3.8
|
41.1
|
1.0
|
|
HE22
|
I:GLN132
|
3.9
|
37.5
|
1.0
|
|
H
|
I:SER42
|
4.1
|
49.3
|
1.0
|
|
NE2
|
I:GLN132
|
4.1
|
31.3
|
1.0
|
|
CA
|
I:SER42
|
4.3
|
37.1
|
1.0
|
|
CZ
|
I:TYR15
|
4.4
|
39.3
|
1.0
|
|
CG
|
I:HIS44
|
4.5
|
37.2
|
1.0
|
|
OD2
|
I:ASP83
|
4.5
|
36.2
|
1.0
|
|
HE2
|
I:TYR15
|
4.5
|
42.5
|
1.0
|
|
HA
|
I:ILE43
|
4.6
|
45.2
|
1.0
|
|
HB2
|
I:SER42
|
4.6
|
49.3
|
1.0
|
|
N
|
I:SER42
|
4.6
|
41.1
|
1.0
|
|
N
|
I:ILE43
|
4.7
|
34.1
|
1.0
|
|
CG
|
I:LEU13
|
4.7
|
39.3
|
1.0
|
|
HG3
|
I:GLN132
|
4.7
|
47.4
|
1.0
|
|
CE1
|
I:HIS44
|
4.8
|
40.1
|
1.0
|
|
HB2
|
I:LEU13
|
4.9
|
48.4
|
1.0
|
|
CG
|
I:GLN132
|
4.9
|
39.5
|
1.0
|
|
HE21
|
I:GLN132
|
4.9
|
37.5
|
1.0
|
|
CE2
|
I:TYR15
|
4.9
|
35.4
|
1.0
|
|
HB2
|
I:HIS44
|
4.9
|
46.6
|
1.0
|
|
HG
|
I:LEU13
|
4.9
|
47.1
|
1.0
|
|
Sodium binding site 10 out
of 10 in 5f2q
Go back to
Sodium Binding Sites List in 5f2q
Sodium binding site 10 out
of 10 in the C-Type Lectin From Bothrops Jararacussu
 Mono view
 Stereo pair view
|
|
A full contact list of Sodium with other atoms in the Na binding
site number 10 of C-Type Lectin From Bothrops Jararacussu within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
J:Na202
b:39.6
occ:1.00
|
OG
|
J:SER42
|
2.5
|
47.4
|
1.0
|
|
HD2
|
J:HIS44
|
2.6
|
51.8
|
1.0
|
|
HG
|
J:SER42
|
2.7
|
56.9
|
1.0
|
|
HD12
|
J:LEU13
|
2.8
|
51.8
|
1.0
|
|
HH
|
J:TYR15
|
2.9
|
55.2
|
1.0
|
|
OE1
|
J:GLN132
|
3.1
|
43.9
|
1.0
|
|
HE22
|
J:GLN132
|
3.2
|
50.1
|
1.0
|
|
O
|
J:SER42
|
3.2
|
38.5
|
1.0
|
|
CD2
|
J:HIS44
|
3.2
|
43.1
|
1.0
|
|
HD11
|
J:LEU13
|
3.3
|
51.8
|
1.0
|
|
OH
|
J:TYR15
|
3.3
|
46.0
|
1.0
|
|
NE2
|
J:HIS44
|
3.4
|
46.1
|
1.0
|
|
CD1
|
J:LEU13
|
3.4
|
43.2
|
1.0
|
|
HD13
|
J:LEU13
|
3.7
|
51.8
|
1.0
|
|
NE2
|
J:GLN132
|
3.7
|
41.8
|
1.0
|
|
CD
|
J:GLN132
|
3.8
|
45.1
|
1.0
|
|
CB
|
J:SER42
|
3.9
|
41.8
|
1.0
|
|
H
|
J:SER42
|
3.9
|
54.5
|
1.0
|
|
C
|
J:SER42
|
4.0
|
42.8
|
1.0
|
|
OD2
|
J:ASP83
|
4.0
|
49.3
|
1.0
|
|
HB2
|
J:SER42
|
4.3
|
50.1
|
1.0
|
|
CA
|
J:SER42
|
4.4
|
43.5
|
1.0
|
|
HB3
|
J:SER42
|
4.5
|
50.1
|
1.0
|
|
HE21
|
J:GLN132
|
4.5
|
50.1
|
1.0
|
|
CG
|
J:HIS44
|
4.5
|
40.1
|
1.0
|
|
N
|
J:SER42
|
4.6
|
45.4
|
1.0
|
|
CZ
|
J:TYR15
|
4.6
|
40.9
|
1.0
|
|
CE1
|
J:HIS44
|
4.7
|
44.0
|
1.0
|
|
CG
|
J:LEU13
|
4.8
|
43.2
|
1.0
|
|
HE2
|
J:TYR15
|
4.8
|
47.0
|
1.0
|
|
HG
|
J:LEU13
|
4.8
|
51.8
|
1.0
|
|
HA
|
J:ILE43
|
5.0
|
50.5
|
1.0
|
|
N
|
J:ILE43
|
5.0
|
42.8
|
1.0
|
|
Reference:
R.A.P.De Padua,
M.P.Pinheiro,
M.A.Sartim,
S.S.Vilela,
M.C.Nonato.
C-Type Lectin From Bothrops Jararacussu To Be Published.
Page generated: Mon Oct 7 20:57:18 2024
|
